LOCUS       NZ_CP059132             4073 bp    DNA     circular CON 31-AUG-2023
DEFINITION  Escherichia coli strain Ec55 plasmid pEc55_2, complete sequence.
ACCESSION   NZ_CP059132
VERSION     NZ_CP059132.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN15486685
            Assembly: GCF_019355495.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4073)
  AUTHORS   Mahazu,S., Wakano,S., Ayibieke,A., Prah,I., Ablordey,A. and Saito,R.
  TITLE     Whole genome analysis of ESBL producing E.coli ST131 from Ghana
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4073)
  AUTHORS   Mahazu,S., Wakano,S., Ayibieke,A., Prah,I., Ablordey,A. and Saito,R.
  TITLE     Direct Submission
  JOURNAL   Submitted (08-JUL-2020) Molecular Microbiology, Tokyo Medical and
            Dental University, 1-5-45 Yushima, Bunkyo-ku, Tokyo 113-8510, Japan
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 2020
            Assembly Method                   :: Unicycler v. v0.4.8
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 1000x
            Sequencing Technology :: Oxford Nanopore MiniION; Illumina MiSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 08/29/2023 04:43:06
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.6
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 5,347
            CDSs (total)                      :: 5,233
            Genes (coding)                    :: 5,005
            CDSs (with protein)               :: 5,005
            Genes (RNA)                       :: 114
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 5
            Pseudo Genes (total)              :: 228
            CDSs (without protein)            :: 228
            Pseudo Genes (ambiguous residues) :: 0 of 228
            Pseudo Genes (frameshifted)       :: 83 of 228
            Pseudo Genes (incomplete)         :: 166 of 228
            Pseudo Genes (internal stop)      :: 39 of 228
            Pseudo Genes (multiple problems)  :: 52 of 228
            Pseudo Genes (short protein)      :: 3 of 228
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP059132.1.
            The annotation was added by the NCBI Prokaryotic Genome Annotation
            Pipeline (PGAP). Information about PGAP can be found here:
            https://www.ncbi.nlm.nih.gov/genome/annotation_prok/
            COMPLETENESS: full length.
FEATURES             Location/Qualifiers
     source          1..4073
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="Ec55"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pEc55_2"
                     /geo_loc_name="Ghana"
                     /collection_date="2016"
     gene            join(2676..4073,1..750)
                     /gene="mobQ"
                     /locus_tag="H0X92_RS26425"
                     /old_locus_tag="H0X92_26305"
     CDS             join(2676..4073,1..750)
                     /gene="mobQ"
                     /locus_tag="H0X92_RS26425"
                     /old_locus_tag="H0X92_26305"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016240513.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobQ family relaxase"
                     /protein_id="WP_001029354.1"
                     /translation="MAIYHLSMKIISRSSGYSAVASAAYRSGSLMLDERTGLTHDYTRK
                     SGVAEAVILTPATAPAWCTNRAELWNAVEKAERRKNSQLAREIELAIPHELPQDAARET
                     VLAFVRENFVSQGMIADVAFHHMDKTNPHAHIMLTTRAIGPAGFSGKVRDWNDRTHAET
                     WRASWADHANRALANAGYQEEIDHRSYERQGLEKTPGIHLGKSACAMETRGIETERGEQ
                     NRLINRLNLEIQISRTELRNGGLTEPARRVADLLNIGLPDNATSYTLRDIIEALPKDSN
                     SAWKLTSNAMSMMADMQATRRRWEELNTERKEAMSHAASLKKSSPFSSGFSRIPLMQWA
                     APEYRSEQGKIQSLSQQMEKLRQHYRKVEKQDIPASQMAFEKQWQQWGESGLAALRAQL
                     LKREEELRRKEQEDTERSRAEQLRKNDNAVMDSGVLRAVVTGYGEAPMPGNGEMTCYLL
                     LHNRNGEYTLWGNELEKYRTRIFESVDLMRDRSGYICDRSEIGQRPPLQRVYSSATFEQ
                     LLTQVCQTWPQHTRNLRQPKTWPESFCLGEDRQPAMPSPAARKVDFMQGRLPPTLMPVM
                     SSVDRETRQLQLLLVMGVDDSLGGVIRLNGTLYPAFAVPSADNRHLVISALTDKGLRYA
                     GYGVAVNHDADSHISPAPELMQFHLKTREAPLFAAVNTPEKQPDHLFRSLGFNRTWEEW
                     QREEDARTHTTERRHDRGWSQ"
                     /name="mobQ"
     gene            complement(1008..1709)
                     /locus_tag="H0X92_RS26430"
                     /old_locus_tag="H0X92_26310"
     CDS             complement(1008..1709)
                     /locus_tag="H0X92_RS26430"
                     /old_locus_tag="H0X92_26310"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001281399.1"
                     /GO_function="GO:0003887 - DNA-directed DNA polymerase
                     activity [Evidence IEA]"
                     /GO_process="GO:0006270 - DNA replication initiation
                     [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="WP_001281395.1"
                     /translation="MSDLIAYKSNALIEASYKLTLQEQRFLLVCISRLKSGEDSPSPDE
                     QKTMTITAAEFHDAFPDMGRQHAEARLKEAIDRLWDRSVIIKNEEKREEFRWVQYRAQY
                     FKGEAKVDITFSDAIMPYLTQLKGQFTRVVVKNVSSLSSTYSIRIYELLQQFRSTGDRT
                     IAIDDFRTMLAVEDKYQQFKDLNKMIIKPAIAELNEKSDLVVTVETIKKGRTVVALHFR
                     FKEDKQIKMTI"
                     /name="replication initiation protein"
     gene            complement(2243..2497)
                     /gene="mobC"
                     /locus_tag="H0X92_RS26435"
                     /old_locus_tag="H0X92_26315"
     CDS             complement(2243..2497)
                     /gene="mobC"
                     /locus_tag="H0X92_RS26435"
                     /old_locus_tag="H0X92_26315"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000091747.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="relaxase accessory protein MobC"
                     /protein_id="WP_000091746.1"
                     /translation="MSRTLEQKIADAEARLQRLKAKSRSLDTAQKVVVGAALLAKVRKP
                     EEVQLRAWLLQFLKAEVTRQADVTRILPLINELEALPEQ"
                     /name="mobC"
     Typing          complement(2499..2675)
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="5.61e-88"
     Typing          2676..3034
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          complement(1009..1709)
                     /name="rep_cluster_1778"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          2..747
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="94.779"
                     /coverage="100.0"
                     /evalue="1.57e-158"
     Typing          2677..4073
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="96.596"
                     /coverage="83.0"
                     /evalue="0.0"
ORIGIN
        1 acgctctggg ggaacgagct ggagaaatac cgcaccagaa tctttgagag tgttgattta
       61 atgcgtgaca ggagtggtta tatctgtgac cgaagcgaaa tcggccaacg tccgccactg
      121 caacgtgttt attcctctgc aacctttgag caactgctga cgcaggtttg ccagacatgg
      181 ccgcaacata cccgcaatct ccgccagccg aagacatggc cggagtcttt ctgtcttgga
      241 gaagaccgcc agccagccat gccatcacca gcggcaagga aggtggattt tatgcaggga
      301 cgtctgccac cgacgctgat gccggtcatg agttctgtcg accgggaaac ccgccagctt
      361 cagcttttgc tggtcatggg cgtggatgac tctctgggcg gtgttatccg gcttaatggt
      421 acgctgtatc ccgcgtttgc cgttccctca gccgataaca ggcatctggt catcagtgcg
      481 ctgaccgata aggggttacg gtatgcaggg tatggtgttg ccgtaaatca cgatgcagac
      541 agccacatat cacctgcacc agaactgatg cagtttcatc tgaaaacccg tgaggcaccg
      601 ctttttgctg ccgtcaacac accagaaaaa cagccggatc atctgttccg ctcgctgggt
      661 tttaatcgta cctgggagga atggcagcgc gaggaagatg cacgaacaca caccaccgag
      721 aggagacatg atcgcggttg gtcacagtga atgtgaacaa tattttgttt tgtttaacat
      781 cgtgttatgt tcgtcgatgt tcttcgatgt tcatcgacag ggatgaatgc aagaagcaca
      841 ctcacataac gcaagcatag ttttgttttt ccgcccccaa aaattggggg gtcttttttc
      901 gctgcatcag agcgtttttg acgcaatttt tcacttcaat agtaccttcg cactactaac
      961 acaaaaaaaa cgcagcaggg agcgttttag gtgccttaaa atcgatttta gatcgtcatc
     1021 ttgatctgtt tgtcttcctt gaagcgaaaa tgcagggcta caaccgtgcg cccctttttg
     1081 atcgtctcaa cagttacaac cagatcgctt ttttcgttca gttcggcgat ggctggcttg
     1141 attatcatct tattcaagtc tttgaattgt tgatatttat cttcaacggc aagcatggtt
     1201 cggaaatcat cgatagctat cgttctgtca ccggtgctgc ggaactgctg gagcagctcg
     1261 taaatgcgga tgctgtaggt gctggaaagg ctggagacgt tcttcacgac tacccgcgta
     1321 aactgcccct tgagctgtgt cagatacggc atgatggcat cggagaaggt gatatctact
     1381 ttcgcctcac ctttgaaata ctgcgcccgg tactgcaccc agcggaactc ttctcgtttt
     1441 tcctcgttct tgatgattac tgacctgtcc cagaggcgat ctatcgcttc cttgagccta
     1501 gcttcagcgt gctgccgtcc catgtcagga aaggcatcat gaaactctgc agccgtgatg
     1561 gtcatggttt tttgttcatc cggcgaaggg gaatcttctc cggattttag gcggctgata
     1621 cagaccagca ggaagcgctg ttcctgcaaa gtgagcttgt agcttgcctc gataagggcg
     1681 tttgatttgt aagctatcag atctgacatt tcgcttgctc gttgctattg gtggcgtttt
     1741 tttactgtac gccacttatc atatgggtgg aagttttttt tttgcaaccc cctttttctg
     1801 tggattacac ccccaaaagc tccacctttc acccccaaaa gctccacctt tcacccccaa
     1861 aagctccacc tttcaccccc aaaagctcca cttatcttgc cagaacatct ttaaaatcat
     1921 ggtgttacaa gacctaaaaa ggttttaaaa aaaaagatct aaaaataaga tcttaaaaac
     1981 ttaacggcga gcctgtggat aacttggggt gctgaaaaca aaaaaccaat aaaaacaatg
     2041 cgttgcaata aagcagaatt gcaagtttcg aatacacccc ctccaaccct gtggaaaccc
     2101 agtattcatg cgggttcagc gcatatcacc tgccgaaaaa ccgtgcgtat gtgctcaacc
     2161 tggcgactga ttcacttccg cttcctcgcc cactcgctcg ctaacgctcg gtcgctgggg
     2221 ctgcggcgag cggacgatac aatcactgtt ctggcagcgc ctccagctcg ttaatcagcg
     2281 gcagtatgcg cgtcacatca gcctgtcgtg tcacctctgc cttcaggaac tggagtaacc
     2341 aggcacgcaa ctgcacctcc tccggctttc tgacctttgc cagcaatgca gcacccacaa
     2401 caaccttctg cgctgtgtcc aggctccggc tcttcgcctt caggcgctgt aatctcgcct
     2461 cagcatcagc aatcttctgt tcgagcgttc tgctcatgat gtaactccgt gcgcgatgaa
     2521 aaatcgcatt ttagcgcgtc actggtagtt taaaaactga gctggcataa tgcacggcaa
     2581 atcacgaagt gcgcacttat acaatctcca ctccgtttcg attgtgtgcg ccctgcgggg
     2641 ctgaaagaaa actacaaaaa ggcattacgg cagaaatggc gatttatcat ctcagcatga
     2701 aaattatctc cagaagcagc ggctacagcg ccgtagcttc cgctgcctat cgttccggtt
     2761 cactgatgct tgatgagcgt accggactga ctcacgacta cacccgcaaa agcggtgtgg
     2821 ctgaggctgt gattctgacc cccgccaccg cccctgcctg gtgtacgaac cgtgccgaac
     2881 tctggaatgc cgttgagaag gccgaacgcc ggaagaactc acaacttgcg cgggaaattg
     2941 aactcgccat cccccacgaa ctgccgcagg atgccgcacg ggaaaccgtt ctcgcctttg
     3001 tcagagaaaa ctttgtcagt cagggcatga ttgctgatgt ggcgttccat cacatggata
     3061 aaacaaatcc ccatgcgcac atcatgctga ccacgagggc tatcggacct gctgggttca
     3121 gcggaaaggt cagggactgg aacgaccgga cacatgccga gacgtggcgg gcatcatggg
     3181 ctgaccatgc aaacagggca ctggcgaacg ccggttatca ggaagagata gaccatcgtt
     3241 catacgagcg acaggggctt gagaaaacgc ctggtattca cctcggaaag tctgcctgtg
     3301 cgatggaaac acgcggtatc gaaacagaac gcggcgaaca gaatcgtctg attaacaggc
     3361 ttaacctgga aatacagatt tcccgcaccg aactcaggaa cggagggctg acagagcctg
     3421 cccgccgtgt ggctgacctt ctgaatatcg ggcttcctga caacgcaact tcgtacacac
     3481 tacgtgacat tatcgaagcg ttgccgaagg acagtaactc ggcatggaaa ctcaccagta
     3541 atgccatgtc gatgatggca gatatgcagg cgacgcgcag acgctgggaa gagctgaaca
     3601 ccgaacgaaa ggaagcgatg agccatgctg ccagcctgaa aaaatcatcg ccgttttcgt
     3661 ccggtttttc ccgtattccc ctgatgcaat gggcggcacc ggaataccgt agtgagcagg
     3721 gaaaaatcca gtctctgagc cagcaaatgg aaaaattacg acagcattac cggaaggtgg
     3781 agaaacagga cattcccgcg agtcagatgg catttgaaaa acagtggcag cagtgggggg
     3841 aatccggcct tgcagctctc agagcccagt tgcttaaacg tgaagaggaa ttgcgccgga
     3901 aggaacagga agatactgaa cgtagtcgcg cggagcagct caggaaaaat gacaatgccg
     3961 ttatggattc aggggtgctg agagcagtcg ttacggggta tggcgaggct cccatgcctg
     4021 gtaacgggga aatgacctgt taccttctgc ttcacaaccg gaacggagaa tat
//
